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  1. Download Chimera (to your personal laptop) from: Chimera
  2. Optionally, create also an alias, so that Chimera can be opened from a command line, with a ".pdb" file as an argument. If Chimera was installed into /Applications, the alias for the .zshrc file would look like:
    alias chimera='/Applications/Chimera.app/Contents/MacOS/chimera'


Part 1

Introduction for task 1:

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  • Open the the ligand molecule (nutlin.pdb).
    $ chimera nutlin.pdb
  • Open the command line: Tools→ General Controls → Command Line and type
  • distance @H9,H10
    This will be the reference distance rRef.

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